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dc.contributor.authorParcell, Benjamin J.
dc.contributor.authorGillespie, Stephen H.
dc.contributor.authorPettigrew, Kerry A.
dc.contributor.authorHolden, Matthew T.G.
dc.identifier.citationParcell , B J , Gillespie , S H , Pettigrew , K A & Holden , M T G 2021 , ' Clinical perspectives in integrating whole genome sequencing into the investigation of healthcare and public health outbreaks – hype or help? ' , Journal of Hospital Infection , vol. 109 , pp. 1-9 .
dc.identifier.otherRIS: urn:F3826F66BA43CE245D50F0108B6ECF18
dc.identifier.otherORCID: /0000-0001-6537-7712/work/83481822
dc.identifier.otherORCID: /0000-0002-4958-2166/work/83481884
dc.descriptionBioinformatics and Computational Biology analyses were supported by the University of St Andrews Bioinformatics Unit which is funded by a Wellcome Trust ISSF award [grant 097831/Z/11/Z]. The SHAIPI consortium is funded by the Chief Scientist Office through the Scottish Infection Research Network (SIRN10).en
dc.description.abstractOutbreaks pose a significant patient safety risk as well as being costly and time consuming to investigate. The implementation of targeted infection prevention and control (IPC) measures relies on infection prevention and control teams (IPCTs) having access to rapid results that accurately detect resistance, and typing results that give clinically useful information on the relatedness of isolates. At present, determining whether transmission has occurred can be a major challenge. Conventional typing results do not always have sufficient granularity or robustness to unequivocally define strains, and sufficient epidemiological data to establish links between patients and the environment is not always available. Whole genome sequencing (WGS) has emerged as the ultimate genotyping tool, but has not yet fully crossed the divide between research method and routine clinical diagnostic microbiology technique. A clinical WGS service was officially established in 2014 as part of the Scottish Healthcare Associated Infection Prevention Institute (SHAIPI) to confirm or refute outbreaks in hospital settings from across Scotland. In this personal view we describe our experiences that we believe provide new insights into the practical application of the use of WGS to investigate healthcare and public health outbreaks. We also propose solutions to overcome barriers to implementation of this technology in a clinical environment.
dc.relation.ispartofJournal of Hospital Infectionen
dc.subjectWhole genome sequencingen
dc.subjectHealthcare associated infectionsen
dc.subjectPulsed-field gel electrophoresisen
dc.subjectVariable number of tandem repeatsen
dc.subjectMultilocus sequence typingen
dc.subjectQH426 Geneticsen
dc.subjectSDG 3 - Good Health and Well-beingen
dc.titleClinical perspectives in integrating whole genome sequencing into the investigation of healthcare and public health outbreaks – hype or help?en
dc.typeJournal articleen
dc.contributor.sponsorThe Wellcome Trusten
dc.contributor.institutionUniversity of St Andrews. Infection and Global Health Divisionen
dc.contributor.institutionUniversity of St Andrews. School of Medicineen
dc.contributor.institutionUniversity of St Andrews. Sir James Mackenzie Institute for Early Diagnosisen
dc.contributor.institutionUniversity of St Andrews. Centre for Biophotonicsen
dc.contributor.institutionUniversity of St Andrews. Biomedical Sciences Research Complexen
dc.contributor.institutionUniversity of St Andrews. Global Health Implementation Groupen
dc.contributor.institutionUniversity of St Andrews. Gillespie Groupen
dc.contributor.institutionUniversity of St Andrews. Infection Groupen
dc.contributor.institutionUniversity of St Andrews. St Andrews Bioinformatics Uniten
dc.description.statusPeer revieweden

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